HHsearch alignment for GI: 254780610 and conserved domain: TIGR03069
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=98.33 E-value=1.7e-06 Score=58.53 Aligned_cols=53 Identities=26% Similarity=0.325 Sum_probs=44.5
Q ss_pred HCCCCHHHHHHHHCCCCCCHHHHHHHHHCCCEEECCEEECCCCCEECCCCEEEEE
Q ss_conf 3687578999987176889899999998599049989932867580489889997
Q gi|254780610|r 20 TAEGRIDRWLATSLKEQFSRSYVKILILNGFISINGMVSKNPNRKVVPGDSFLIT 74 (340)
Q Consensus 20 ~~g~RLD~~L~~~l~~~~sR~~i~kli~~G~V~vnG~~~~~~~~~l~~gd~I~i~ 74 (340)
T Consensus 181 vsSlRLDavvs~~~--~~SRska~~lI~~g~V~vN~~~v~~~s~~v~~gDiiSvR 233 (257)
T TIGR03069 181 EASLRIDAIASAGF--GLSRSKIVDQIKAGRLRLNWKTVTQPSRELKVGDRLQLR 233 (257)
T ss_pred ECCCCHHHHHHHHH--CCCHHHHHHHHHCCEEEECCEEECCCCCCCCCCCEEEEE
T ss_conf 21213899999886--657999999988496898999905787566899999990